arXiv subjects

Zhong-Lin Lu

Publications and source records attributed to Zhong-Lin Lu.

8 recordsLinked to original sources

arXiv2025

Quantification of Planar Cortical Magnification with Optimal Transport and Topological Smoothing

The human visual system exhibits non-uniform spatial resolution across the visual field, which is characterized by the cortical magnification factor (CMF) that reflects its anatomical basis. However, current approaches for quantifying CMF using retinotopic maps derived from BOLD functional magnetic resonance imaging (fMRI) are limited by the inherent low signal-to-noise ratio of fMRI data and inaccuracies in the topological relationships of the retinotopic maps. In this study, we introduced a new pipeline to quantify planar CMF from retinotopic maps generated from the population receptive field (pRF) model. The pipeline projected the 3D pRF solutions onto a 2D planar disk, using optimal transport (OT) to preserve local cortical surface areas, and applied topological smoothing to ensure that the resulting retinotopic maps maintain their topology. We then estimated 2D CMF maps from the projected retinotopic maps on the planar disk using the 1-ring patch method. Applying this pipeline to the Human Connectome Project (HCP) 7T dataset, we revealed previously unobserved CMF patterns across the visual field and demonstrated individual differences among the 181 subjects. The pipeline was further validated on the New York University (NYU) 3T dataset, showing reliable and repeatable results. Our study provided new analytical methods and offered novel insights into visual processing.

q-bio.NC↗

arXiv2024

Characterizing visual cortical magnification with topological smoothing and optimal transportation

Human vision has different concentration on visual fields. Cortical magnification factor (CMF) is a popular measurement on visual acuity and cortex concentration. In order to achieve thorough measurement of CMF across the whole visual field, we propose a method to measure planar CMF upon retinotopic maps generated by pRF decoding, with help of our proposed methods: optimal transportation and topological smoothing. The optimal transportation re-calculates vertex location in retinotopic mapping, and topological smoothing guarantees topological conditions in retinotopic maps, which allow us to calculate planar CMF with the proposed 1-ring patch method. The pipeline was applied to the HCP 7T dataset, giving new planar results on CMF measurement across all 181 subjects, which illustrate novel concentration behavior on visual fields and their individual difference.

q-bio.NC↗

arXiv2024

Reconstructing Retinal Visual Images from 3T fMRI Data Enhanced by Unsupervised Learning

The reconstruction of human visual inputs from brain activity, particularly through functional Magnetic Resonance Imaging (fMRI), holds promising avenues for unraveling the mechanisms of the human visual system. Despite the significant strides made by deep learning methods in improving the quality and interpretability of visual reconstruction, there remains a substantial demand for high-quality, long-duration, subject-specific 7-Tesla fMRI experiments. The challenge arises in integrating diverse smaller 3-Tesla datasets or accommodating new subjects with brief and low-quality fMRI scans. In response to these constraints, we propose a novel framework that generates enhanced 3T fMRI data through an unsupervised Generative Adversarial Network (GAN), leveraging unpaired training across two distinct fMRI datasets in 7T and 3T, respectively. This approach aims to overcome the limitations of the scarcity of high-quality 7-Tesla data and the challenges associated with brief and low-quality scans in 3-Tesla experiments. In this paper, we demonstrate the reconstruction capabilities of the enhanced 3T fMRI data, highlighting its proficiency in generating superior input visual images compared to data-intensive methods trained and tested on a single subject.

cs.CV↗

arXiv2024

Enhancing 3T Retinotopic Maps Using Diffeomorphic Registration

Retinotopic mapping aims to uncover the relationship between visual stimuli on the retina and neural responses on the visual cortical surface. This study advances retinotopic mapping by applying diffeomorphic registration to the 3T NYU retinotopy dataset, encompassing analyze-PRF and mrVista data. Diffeomorphic Registration for Retinotopic Maps (DRRM) quantifies the diffeomorphic condition, ensuring accurate alignment of retinotopic maps without topological violations. Leveraging the Beltrami coefficient and topological condition, DRRM significantly enhances retinotopic map accuracy. Evaluation against existing methods demonstrates DRRM's superiority on various datasets, including 3T and 7T retinotopy data. The application of diffeomorphic registration improves the interpretability of low-quality retinotopic maps, holding promise for clinical applications.

eess.IV↗

arXiv2021

Topological Receptive Field Model for Human Retinotopic Mapping

The mapping between visual inputs on the retina and neuronal activations in the visual cortex, i.e., retinotopic map, is an essential topic in vision science and neuroscience. Human retinotopic maps can be revealed by analyzing the functional magnetic resonance imaging (fMRI) signal responses to designed visual stimuli in vivo. Neurophysiology studies summarized that visual areas are topological (i.e., nearby neurons have receptive fields at nearby locations in the image). However, conventional fMRI-based analyses frequently generate non-topological results because they process fMRI signals on a voxel-wise basis, without considering the neighbor relations on the surface. Here we propose a topological receptive field (tRF) model which imposes the topological condition when decoding retinotopic fMRI signals. More specifically, we parametrized the cortical surface to a unit disk, characterized the topological condition by tRF, and employed an efficient scheme to solve the tRF model. We tested our framework on both synthetic and human fMRI data. Experimental results showed that the tRF model could remove the topological violations, improve model explaining power, and generate biologically plausible retinotopic maps. The proposed framework is general and can be applied to other sensory maps.

q-bio.NC↗

arXiv2020

Optimizing Visual Cortex Parameterization with Error-Tolerant Teichmuller Map in Retinotopic Mapping

The mapping between the visual input on the retina to the cortical surface, i.e., retinotopic mapping, is an important topic in vision science and neuroscience. Human retinotopic mapping can be revealed by analyzing cortex functional magnetic resonance imaging (fMRI) signals when the subject is under specific visual stimuli. Conventional methods process, smooth, and analyze the retinotopic mapping based on the parametrization of the (partial) cortical surface. However, the retinotopic maps generated by this approach frequently contradict neuropsychology results. To address this problem, we propose an integrated approach that parameterizes the cortical surface, such that the parametric coordinates linearly relates the visual coordinate. The proposed method helps the smoothing of noisy retinotopic maps and obtains neurophysiological insights in human vision systems. One key element of the approach is the Error-Tolerant Teichmuller Map, which uniforms the angle distortion and maximizes the alignments to self-contradicting landmarks. We validated our overall approach with synthetic and real retinotopic mapping datasets. The experimental results show the proposed approach is superior in accuracy and compatibility. Although we focus on retinotopic mapping, the proposed framework is general and can be applied to process other human sensory maps.

q-bio.NC↗

arXiv2018

Experimental Design Modulates Variance in BOLD Activation: The Variance Design General Linear Model

Typical fMRI studies have focused on either the mean trend in the blood-oxygen-level-dependent (BOLD) time course or functional connectivity (FC). However, other statistics of the neuroimaging data may contain important information. Despite studies showing links between the variance in the BOLD time series (BV) and age and cognitive performance, a formal framework for testing these effects has not yet been developed. We introduce the Variance Design General Linear Model (VDGLM), a novel framework that facilitates the detection of variance effects. We designed the framework for general use in any fMRI study by modeling both mean and variance in BOLD activation as a function of experimental design. The flexibility of this approach allows the VDGLM to i) simultaneously make inferences about a mean or variance effect while controlling for the other and ii) test for variance effects that could be associated with multiple conditions and/or noise regressors. We demonstrate the use of the VDGLM in a working memory application and show that engagement in a working memory task is associated with whole-brain decreases in BOLD variance.

q-bio.NC↗

arXiv2018

Predicting Task and Subject Differences with Functional Connectivity and BOLD Variability

Previous research has found that functional connectivity (FC) can accurately predict the identity of a subject performing a task and the type of task being performed. We replicate these results using a large dataset collected at the OSU Center for Cognitive and Behavioral Brain Imaging. We also introduce a novel perspective on task and subject identity prediction: BOLD Variability (BV). Conceptually, BV is a region-specific measure based on the variance within each brain region. BV is simple to compute, interpret, and visualize. We show that both FC and BV are predictive of task and subject, even across scanning sessions separated by multiple years. Subject differences rather than task differences account for the majority of changes in BV and FC. Similar to results in FC, we show that BV is reduced during cognitive tasks relative to rest.

q-bio.NC↗